Identification and characterization of two new 5-keto-4-deoxy-D-Glucarate Dehydratases/Decarboxylases

André Pick, Barbara Beer, Risa Hemmi, Rena Momma, Jochen Schmid, Kenji Miyamoto, Volker Sieber

Research output: Contribution to journalArticle

4 Citations (Scopus)

Abstract

Background: Hexuronic acids such as D-galacturonic acid and D-glucuronic acid can be utilized via different pathways within the metabolism of microorganisms. One representative, the oxidative pathway, generates α-keto-glutarate as the direct link entering towards the citric acid cycle. The penultimate enzyme, keto-deoxy glucarate dehydratase/decarboxylase, catalyses the dehydration and decarboxylation of keto-deoxy glucarate to α-keto-glutarate semialdehyde. This enzymatic reaction can be tracked continuously by applying a pH-shift assay. Results: Two new keto-deoxy glucarate dehydratases/decarboxylases (EC 4.2.1.41) from Comamonas testosteroni KF-1 and Polaromonas naphthalenivorans CJ2 were identified and expressed in an active form using Escherichia coli ArcticExpress(DE3). Subsequent characterization concerning K m, k cat and thermal stability was conducted in comparison with the known keto-deoxy glucarate dehydratase/decarboxylase from Acinetobacter baylyi ADP1. The kinetic constants determined for A. baylyi were K m 1.0 mM, k cat 4.5 s-1, for C. testosteroni K m 1.1 mM, k cat 3.1 s-1, and for P. naphthalenivorans K m 1.1 mM, k cat 1.7 s-1. The two new enzymes had a slightly lower catalytic activity (increased K m and a decreased k cat) but showed a higher thermal stability than that of A. baylyi. The developed pH-shift assay, using potassium phosphate and bromothymol blue as the pH indicator, enables a direct measurement. The use of crude extracts did not interfere with the assay and was tested for wild-type landscapes for all three enzymes. Conclusions: By establishing a pH-shift assay, an easy measurement method for keto-deoxy glucarate dehydratase/decarboxylase could be developed. It can be used for measurements of the purified enzymes or using crude extracts. Therefore, it is especially suitable as the method of choice within an engineering approach for further optimization of these enzymes.

Original languageEnglish
Article number80
JournalBMC Biotechnology
Volume16
Issue number1
DOIs
Publication statusPublished - 2016 Nov 17

Fingerprint

Carboxy-Lyases
Cats
Comamonas testosteroni
Glutarates
Enzymes
Complex Mixtures
Bromthymol Blue
Hexuronic Acids
Hot Temperature
Glucuronic Acid
Acinetobacter
Decarboxylation
Citric Acid Cycle
Dehydration
5-keto-4-deoxy-D-glucarate dehydratase
Escherichia coli
glucarate dehydratase

Keywords

  • Acinetobacter baylyi
  • Comamonas testosteroni
  • Dehydratase
  • Keto-deoxy-D-Glucarate
  • Polaromonas naphthalenivorans

ASJC Scopus subject areas

  • Biotechnology

Cite this

Identification and characterization of two new 5-keto-4-deoxy-D-Glucarate Dehydratases/Decarboxylases. / Pick, André; Beer, Barbara; Hemmi, Risa; Momma, Rena; Schmid, Jochen; Miyamoto, Kenji; Sieber, Volker.

In: BMC Biotechnology, Vol. 16, No. 1, 80, 17.11.2016.

Research output: Contribution to journalArticle

Pick, André ; Beer, Barbara ; Hemmi, Risa ; Momma, Rena ; Schmid, Jochen ; Miyamoto, Kenji ; Sieber, Volker. / Identification and characterization of two new 5-keto-4-deoxy-D-Glucarate Dehydratases/Decarboxylases. In: BMC Biotechnology. 2016 ; Vol. 16, No. 1.
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AU - Miyamoto, Kenji

AU - Sieber, Volker

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KW - Polaromonas naphthalenivorans

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